README.md

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Package for analyzing split reads from ONT (Oxford Nanopore Technologies) alignment data.

Install

This simple script will get things going:

pip install ontmont

Test

Please check out whether the unit tests work before you begin using the module, by:

cd /path/to/ontmont
pytest

Ideally you should get some output like:

============================ test session starts =============================
platform linux -- Python 3.11.8, pytest-8.1.1, pluggy-1.4.0
rootdir: /data1/shahs3/users/chois7/projects/ontmont
configfile: pyproject.toml
plugins: cov-5.0.0, anyio-4.3.0
collected 49 items

tests/test_collect.py ........                                         [ 16%]
tests/test_datatypes.py ...........                                    [ 38%]
tests/test_irs.py .......................                              [ 85%]
tests/test_process.py ....                                             [ 93%]
tests/test_utils.py ...                                                [100%]

============================= 49 passed in 2.49s =============================

Usage

Documentation about the modules are in the Read the Docs pages.

Development

Do build and upload to pypi: 1. python -m build 2. python -m twine upload --repository pypi dist/*